Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008446.1 Hibiscus syriacus cultivar Beakdansim tig00111251_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 251382
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 2
Found at i:2049 original size:6 final size:6
Alignment explanation
Indices: 2034--2114 Score: 78
Period size: 6 Copynumber: 13.5 Consensus size: 6
2024 ATTATGCTTG
* *
2034 AAAA-A AAAAGA AAAAGA AAAAG- AAAATA AAAAGA AAATGA AAAAGA
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA
* *
2080 AAATGA AAAA-A AAAATAA AAGGAAGA AAAAGA AAA
1 AAAAGA AAAAGA AAAA-GA AA--AAGA AAAAGA AAA
2115 GGAGGGTTCA
Statistics
Matches: 63, Mismatches: 7, Indels: 11
0.78 0.09 0.14
Matches are distributed among these distances:
5 13 0.21
6 42 0.67
7 3 0.05
8 3 0.05
9 2 0.03
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (6 bp):
AAAAGA
Found at i:2068 original size:23 final size:23
Alignment explanation
Indices: 2033--2099 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
2023 TATTATGCTT
2033 GAAAA-AAAAAGAAAAAGAAAAA
1 GAAAATAAAAAGAAAAAGAAAAA
*
2055 GAAAATAAAAAGAAAATGAAAAA
1 GAAAATAAAAAGAAAAAGAAAAA
*
2078 GAAAATGAAAAA-AAAAATAAAA
1 GAAAAT-AAAAAGAAAAAGAAAA
2100 GGAAGAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
22 5 0.12
23 30 0.75
24 5 0.12
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (23 bp):
GAAAATAAAAAGAAAAAGAAAAA
Found at i:3804 original size:128 final size:130
Alignment explanation
Indices: 3662--3903 Score: 296
Period size: 128 Copynumber: 1.9 Consensus size: 130
3652 TTTTGCTCGG
* * * *
3662 TTCTTCACAGAAGGAGTCAAA-CTAGCATAATCTTA-TTTGCTCGATTTTATCATAGAATGAGGT
1 TTCTTCACAAAAGGAGTCAAATC-AGCATAA-CTTATTTTGCTCGATTCTATCACAAAATGAGGT
* *
3725 AGATC-AC-ATCGATAGTTGTTTGATT-TTCACAGAAGGAGTTGGATCAACAATTTCATTCCGGT
64 AGATCGACTATCGAAAATTG-TTGATTCTTCACAGAAGGAGTTGGATCAACAATTTCATTCCGGT
3787 TGA
128 TGA
** * * *
3790 TTCTTCACAAAAGGAGTTGAATCATCATAACTTATTTTGTTTGATTCTATCACAAAATGAGGTAG
1 TTCTTCACAAAAGGAGTCAAATCAGCATAACTTATTTTGCTCGATTCTATCACAAAATGAGGTAG
* * *
3855 ATCGACTTTGGAAAATTGTTGATTCTTCATAGAAGGAGTTGGATCAACA
66 ATCGACTATCGAAAATTGTTGATTCTTCACAGAAGGAGTTGGATCAACA
3904 TTTTTCATGT
Statistics
Matches: 95, Mismatches: 14, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
127 4 0.04
128 52 0.55
129 9 0.09
130 30 0.32
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (130 bp):
TTCTTCACAAAAGGAGTCAAATCAGCATAACTTATTTTGCTCGATTCTATCACAAAATGAGGTAG
ATCGACTATCGAAAATTGTTGATTCTTCACAGAAGGAGTTGGATCAACAATTTCATTCCGGTTGA
Found at i:4807 original size:18 final size:19
Alignment explanation
Indices: 4774--4813 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
4764 GTATGTTACA
*
4774 TATTTCATATTATATAGTT
1 TATTTCATACTATATAGTT
4793 TATTT-ATACTATATAGTT
1 TATTTCATACTATATAGTT
4811 TAT
1 TAT
4814 AAATAATAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 15 0.75
19 5 0.25
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (19 bp):
TATTTCATACTATATAGTT
Found at i:7484 original size:20 final size:19
Alignment explanation
Indices: 7459--7504 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
7449 ACCATATCGA
*
7459 TAGATTCATAACTATACTTT
1 TAGATTCACAACTATAC-TT
*
7479 TAGATTCACAACTTTACTT
1 TAGATTCACAACTATACTT
7498 TAGATTC
1 TAGATTC
7505 GTAGCTTTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.33, C:0.17, G:0.07, T:0.43
Consensus pattern (19 bp):
TAGATTCACAACTATACTT
Found at i:7501 original size:19 final size:19
Alignment explanation
Indices: 7459--7518 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
7449 ACCATATCGA
*
7459 TAGATTCATAACTATACTTT
1 TAGATTCATAACTTTAC-TT
*
7479 TAGATTCACAACTTTACTT
1 TAGATTCATAACTTTACTT
* *
7498 TAGATTCGTAGCTTTACTT
1 TAGATTCATAACTTTACTT
7517 TA
1 TA
7519 TTCATAGCCC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 20 0.57
20 15 0.43
ACGTcount: A:0.30, C:0.17, G:0.08, T:0.45
Consensus pattern (19 bp):
TAGATTCATAACTTTACTT
Found at i:7526 original size:17 final size:18
Alignment explanation
Indices: 7462--7526 Score: 51
Period size: 19 Copynumber: 3.5 Consensus size: 18
7452 ATATCGATAG
* *
7462 ATTCATAACTATACTTTTA
1 ATTCATAGCTTTAC-TTTA
* *
7481 GATTCACAACTTTACTTTA
1 -ATTCATAGCTTTACTTTA
*
7500 GATTCGTAGCTTTACTTT-
1 -ATTCATAGCTTTACTTTA
7518 ATTCATAGC
1 ATTCATAGC
7527 CCAATGTATA
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
17 8 0.21
19 19 0.49
20 12 0.31
ACGTcount: A:0.29, C:0.18, G:0.08, T:0.45
Consensus pattern (18 bp):
ATTCATAGCTTTACTTTA
Found at i:16113 original size:75 final size:76
Alignment explanation
Indices: 15905--16111 Score: 276
Period size: 75 Copynumber: 2.7 Consensus size: 76
15895 CAAAGCCAAA
* * * * **
15905 AATTACAGATTGCTCAGAGGGAACTGATTCCCCCCCATAGGAGGAACCGATTCCCCCTAAATGGT
1 AATTCCAGAATGCTCGGAGGGAACCGA-TCCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGT
15970 TTTGGCCTCGAG
65 TTTGGCCTCGAG
* *
15982 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
1 AATTCCAGAATGCTCGGAGGGAACCGATCCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
16047 TT-G-CTCCGAG
66 TTGGCCT-CGAG
* * *
16057 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCC
1 AATTCCAGAATGCTCGGAGGGAACCGATCCCCCCCATAGGAGGAACCGATTCCCCC
16112 CTTGTACAAC
Statistics
Matches: 116, Mismatches: 13, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
74 19 0.16
75 38 0.33
76 37 0.32
77 22 0.19
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.21
Consensus pattern (76 bp):
AATTCCAGAATGCTCGGAGGGAACCGATCCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
TTGGCCTCGAG
Found at i:21950 original size:21 final size:21
Alignment explanation
Indices: 21924--21963 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21914 CCCCCTTTGA
*
21924 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
21945 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
21964 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:24201 original size:30 final size:30
Alignment explanation
Indices: 24165--24236 Score: 126
Period size: 30 Copynumber: 2.3 Consensus size: 30
24155 GGGGAAGAAT
24165 AGGTGTTAAATGTTTTACATAATAAATTGA
1 AGGTGTTAAATGTTTTACATAATAAATTGA
24195 AGGTGTTAAATGTTTTACATAATAAATTGA
1 AGGTGTTAAATGTTTTACATAATAAATTGA
24225 AGAAGTGTTAAA
1 AG--GTGTTAAA
24237 GTAAGGGGGA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
30 32 0.80
32 8 0.20
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.38
Consensus pattern (30 bp):
AGGTGTTAAATGTTTTACATAATAAATTGA
Found at i:24753 original size:75 final size:76
Alignment explanation
Indices: 24545--24751 Score: 292
Period size: 75 Copynumber: 2.7 Consensus size: 76
24535 CAAAGCCAAA
* * * **
24545 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACCGATTCCCCCTAAATGGT
1 AATTCCAGAATGCTCGGAGGGAACCGA-TCCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGT
*
24610 TTTGGCTCTGAG
65 TTTGGCTCCGAG
* *
24622 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
1 AATTCCAGAATGCTCGGAGGGAACCGATCCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
24687 TT-GCTCCGAG
66 TTGGCTCCGAG
* * *
24697 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCC
1 AATTCCAGAATGCTCGGAGGGAACCGATCCCCCCCATAGGAGGAACCGATTCCCCC
24752 CTTGTACAAC
Statistics
Matches: 117, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
74 17 0.15
75 40 0.34
76 37 0.32
77 23 0.20
ACGTcount: A:0.25, C:0.31, G:0.24, T:0.21
Consensus pattern (76 bp):
AATTCCAGAATGCTCGGAGGGAACCGATCCCCCCCATAGGAGGAACCGATTCCCCCTAAACAGTT
TTGGCTCCGAG
Found at i:27024 original size:21 final size:21
Alignment explanation
Indices: 26991--27031 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
26981 GATTATAAAA
26991 ATTACTCCTAGTATCGATACT
1 ATTACTCCTAGTATCGATACT
*
27012 ATTAC-CCTCAGTATTGATAC
1 ATTACTCCT-AGTATCGATAC
27032 CCATGCTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 3 0.17
21 15 0.83
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.37
Consensus pattern (21 bp):
ATTACTCCTAGTATCGATACT
Found at i:38803 original size:15 final size:15
Alignment explanation
Indices: 38785--38826 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
38775 ACCGATAATG
*
38785 AGAGTATAAATAGTA
1 AGAGTATAAATACTA
*
38800 AGAGTGTAAATACTA
1 AGAGTATAAATACTA
*
38815 AGAGTACAAATA
1 AGAGTATAAATA
38827 TGAGAGAATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.52, C:0.05, G:0.19, T:0.24
Consensus pattern (15 bp):
AGAGTATAAATACTA
Found at i:39710 original size:64 final size:64
Alignment explanation
Indices: 39624--39751 Score: 202
Period size: 64 Copynumber: 2.0 Consensus size: 64
39614 CGTTTTAAAC
* * *
39624 AGATTAGCTTTATTTGACAATTTTTCCCTCCCAAGTAAATAATTTTTCTTTGAAGTACTCTTAT
1 AGATTAGCTTTATATGACAATTTTTCCCTCCCAAGTAAATAATTTTACATTGAAGTACTCTTAT
* * *
39688 AGATTGGCTTTATATGATAATTTTTCCTTCCCAAGTAAATAATTTTACATTGAAGTACTCTTAT
1 AGATTAGCTTTATATGACAATTTTTCCCTCCCAAGTAAATAATTTTACATTGAAGTACTCTTAT
39752 GGATAGATAT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.30, C:0.16, G:0.10, T:0.45
Consensus pattern (64 bp):
AGATTAGCTTTATATGACAATTTTTCCCTCCCAAGTAAATAATTTTACATTGAAGTACTCTTAT
Found at i:40977 original size:20 final size:21
Alignment explanation
Indices: 40954--41008 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
40944 ACCGGAGGGC
40954 TGGTATCCATACCAAAA-GTT
1 TGGTATCCATACCAAAAGGTT
*
40974 TGGTATCCATACTAAAAGGTT
1 TGGTATCCATACCAAAAGGTT
**
40995 CAGTATCCATACCA
1 TGGTATCCATACCA
41009 GAGGCTTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 16 0.53
21 14 0.47
ACGTcount: A:0.35, C:0.22, G:0.15, T:0.29
Consensus pattern (21 bp):
TGGTATCCATACCAAAAGGTT
Found at i:42344 original size:21 final size:21
Alignment explanation
Indices: 42318--42371 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
42308 GTATTACATG
* *
42318 GTATCCATACCATATGAACTA
1 GTATCCATACCAGATAAACTA
42339 GTATCCATACCAGATAAACTA
1 GTATCCATACCAGATAAACTA
*
42360 ATATCCATACCA
1 GTATCCATACCA
42372 AAGGCTTGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.41, C:0.26, G:0.07, T:0.26
Consensus pattern (21 bp):
GTATCCATACCAGATAAACTA
Found at i:53425 original size:3 final size:3
Alignment explanation
Indices: 53417--53446 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
53407 GATGGTAAAG
53417 GAA GAA GAA GAA GAA GAA GAA GAA G-A GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
53447 CAAAAAAAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.63, C:0.00, G:0.37, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:55014 original size:57 final size:56
Alignment explanation
Indices: 54927--55040 Score: 210
Period size: 57 Copynumber: 2.0 Consensus size: 56
54917 ATAACAATCT
54927 ATGGCAAAAGTTTTTGGACTTGAATTGAATTTATTCAAAGTTTTCAAAAATAATTC
1 ATGGCAAAAGTTTTTGGACTTGAATTGAATTTATTCAAAGTTTTCAAAAATAATTC
*
54983 ATGGCAAAATGTTTTTGGACTTGAATTGAATTTATTCCAAGTTTTCAAAAATAATTC
1 ATGGCAAAA-GTTTTTGGACTTGAATTGAATTTATTCAAAGTTTTCAAAAATAATTC
55040 A
1 A
55041 AAGTCCATTT
Statistics
Matches: 56, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
56 9 0.16
57 47 0.84
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (56 bp):
ATGGCAAAAGTTTTTGGACTTGAATTGAATTTATTCAAAGTTTTCAAAAATAATTC
Found at i:55370 original size:21 final size:21
Alignment explanation
Indices: 55346--55385 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
55336 TAACAAAGGT
55346 AGTACCGATACTCCT-TGTAGG
1 AGTACCGATAC-CCTCTGTAGG
*
55367 AGTACTGATACCCTCTGTA
1 AGTACCGATACCCTCTGTA
55386 CTAGGCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (21 bp):
AGTACCGATACCCTCTGTAGG
Found at i:56024 original size:40 final size:40
Alignment explanation
Indices: 55969--56050 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
55959 TGGAAGATAA
*
55969 AAAGTTGATTGTAGATAGACCGCTTAAGTTTGATAGAATT
1 AAAGTTGATTATAGATAGACCGCTTAAGTTTGATAGAATT
*
56009 AAAGTTGGTTATAGATAGACCGCTTAAGTTTGATAGAATT
1 AAAGTTGATTATAGATAGACCGCTTAAGTTTGATAGAATT
56049 AA
1 AA
56051 GTTTAAAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (40 bp):
AAAGTTGATTATAGATAGACCGCTTAAGTTTGATAGAATT
Found at i:56044 original size:22 final size:22
Alignment explanation
Indices: 55980--56045 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
55970 AAGTTGATTG
55980 TAGATAGACCGCTTAAGTTTGA
1 TAGATAGACCGCTTAAGTTTGA
* *
56002 TAGAATTA-A-AG-TT--GGTT-A
1 TAG-A-TAGACCGCTTAAGTTTGA
56020 TAGATAGACCGCTTAAGTTTGA
1 TAGATAGACCGCTTAAGTTTGA
56042 TAGA
1 TAGA
56046 ATTAAGTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 16
0.62 0.08 0.31
Matches are distributed among these distances:
16 2 0.06
17 2 0.06
18 5 0.16
19 5 0.16
21 5 0.16
22 9 0.28
23 2 0.06
24 2 0.06
ACGTcount: A:0.35, C:0.09, G:0.23, T:0.33
Consensus pattern (22 bp):
TAGATAGACCGCTTAAGTTTGA
Found at i:59239 original size:205 final size:210
Alignment explanation
Indices: 58982--59475 Score: 705
Period size: 215 Copynumber: 2.3 Consensus size: 210
58972 ATTTTATGAA
* * *
58982 AAATACAAATTT-AAGAATTAAATTGAACAAATATGGAATTACAAATAAAAATTTAAATAAATTA
1 AAATA-AAATTTAAAGGACTAAATTGAACAAATATAGAATTACAAATAAAAATTTAAATAAATTA
* *
59046 AACAACACACATTGATGAGGGATCAAATCGAAATAA-T-TT-T-GTTGAAATTAATACAAAAAAG
65 AACAACACACAATGATGAGGGATCAAATCAAAATAATTATTGTGGTTGAAATTAATACAAAAAAG
* * *
59107 TACT-AAATTATACCTATTTAAAAAGTTATGGGACAATTAAAAAATAGAAATAAGTAATAAGTAT
130 TA-TAAAACTATACCCATTTAAAAAGTTATGGGACAATTAAAAAATAGAAATAAATAATAAGTAT
59171 GGGTCAATTTAAGATGC
194 GGGTCAATTTAAGATGC
**
59188 AAATAAAATTTGGAGGACTAAATTGAACAAATAT-GAATTACAAATAAAAATTTAAATAAATTAA
1 AAATAAAATTTAAAGGACTAAATTGAACAAATATAGAATTACAAATAAAAATTTAAATAAATTAA
59252 ACAACACACAATGATGAGGGATCAAATCAAAATAATTTTAAATTGTGAGGTTGAAATTAATACAA
66 ACAACACACAATGATGAGGGATCAAATCAAAATAA--TT--ATTGT--GGTTGAAATTAATACAA
* *
59317 AATAGTATAAAACTATACCCATTTAAAAAGTTATGGGCCAATTAAAAAATAGAAATAAATAATAA
125 AAAAGTATAAAACTATACCCATTTAAAAAGTTATGGGACAATTAAAAAATAGAAATAAATAATAA
* *
59382 GTATGGGTCAATTTCATATGC
190 GTATGGGTCAATTTAAGATGC
* * * *
59403 AATTAAAATTTAAAGGACTAAATTGAACAAATATAAAATTAAAAATTAAAATTTAAATAAATTAA
1 AAATAAAATTTAAAGGACTAAATTGAACAAATATAGAATTACAAATAAAAATTTAAATAAATTAA
59468 ACAACACA
66 ACAACACA
59476 GAGGGATCAA
Statistics
Matches: 257, Mismatches: 18, Indels: 16
0.88 0.06 0.05
Matches are distributed among these distances:
205 69 0.27
206 24 0.09
208 1 0.00
211 2 0.01
212 1 0.00
214 1 0.00
215 124 0.48
216 35 0.14
ACGTcount: A:0.53, C:0.08, G:0.11, T:0.28
Consensus pattern (210 bp):
AAATAAAATTTAAAGGACTAAATTGAACAAATATAGAATTACAAATAAAAATTTAAATAAATTAA
ACAACACACAATGATGAGGGATCAAATCAAAATAATTATTGTGGTTGAAATTAATACAAAAAAGT
ATAAAACTATACCCATTTAAAAAGTTATGGGACAATTAAAAAATAGAAATAAATAATAAGTATGG
GTCAATTTAAGATGC
Found at i:59560 original size:2 final size:2
Alignment explanation
Indices: 59555--59724 Score: 125
Period size: 2 Copynumber: 84.5 Consensus size: 2
59545 AAAACAACTA
*
59555 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AA ACT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
* * * * * * *
59597 AT A- AT TT TT AT A- AT TT TT AT AT AT AA AT -T AT GT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
59636 GA- ACT AT AT AT AT AA ACT AT AT AT CT AA ACT AT AT AT AT AT AT
1 -AT A-T AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT AT AT AT AT
* * *
59679 AT AT AT AT AT AT AT AT AT GT AA ACT AT AT AT AT AT AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT
59722 AT A
1 AT A
59725 AACTATAAAT
Statistics
Matches: 134, Mismatches: 23, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
1 5 0.04
2 123 0.92
3 6 0.04
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59647 original size:13 final size:12
Alignment explanation
Indices: 59631--59731 Score: 82
Period size: 13 Copynumber: 8.0 Consensus size: 12
59621 AAATTATGTT
59631 TATATGAACTATA
1 TATAT-AACTATA
59644 TATATAAACTATA
1 TATAT-AACTATA
*
59657 TATCTAAACTATA
1 TATAT-AACTATA
59670 TATATATA-TATA
1 TATATA-ACTATA
59682 TATATATA-TATA
1 TATATA-ACTATA
*
59694 TATGTAAACTATA
1 TATAT-AACTATA
59707 TATATATA-TATA
1 TATATA-ACTATA
*
59719 TGTATAAACTATA
1 TATAT-AACTATA
59732 AATAGTATAT
Statistics
Matches: 76, Mismatches: 6, Indels: 12
0.81 0.06 0.13
Matches are distributed among these distances:
12 32 0.42
13 44 0.58
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.43
Consensus pattern (12 bp):
TATATAACTATA
Found at i:59672 original size:37 final size:36
Alignment explanation
Indices: 59640--59731 Score: 132
Period size: 37 Copynumber: 2.5 Consensus size: 36
59630 TTATATGAAC
59640 TATATATATAAACTATATATCTAAACTATATATATA
1 TATATATATAAACTATATATCTAAACTATATATATA
*
59676 TATATATATATATA-TATATATGTAAACTATATATATA
1 TATATATATA-A-ACTATATATCTAAACTATATATATA
59713 TATATATGTATAAACTATA
1 TATATA--TATAAACTATA
59732 AATAGTATAT
Statistics
Matches: 50, Mismatches: 1, Indels: 8
0.85 0.02 0.14
Matches are distributed among these distances:
36 10 0.20
37 30 0.60
38 6 0.12
39 4 0.08
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.43
Consensus pattern (36 bp):
TATATATATAAACTATATATCTAAACTATATATATA
Found at i:59923 original size:2 final size:2
Alignment explanation
Indices: 59916--59958 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
59906 TATCTTTAAT
59916 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
59958 T
1 T
59959 TATTCAAAGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:60090 original size:19 final size:19
Alignment explanation
Indices: 60068--60131 Score: 92
Period size: 19 Copynumber: 3.3 Consensus size: 19
60058 TTGAGAGTAT
60068 AGGGAAATTTAGAATTTAA
1 AGGGAAATTTAGAATTTAA
60087 AGGGAAATTTAGAATTTAA
1 AGGGAAATTTAGAATTTAA
* * *
60106 AGAGAAATTGAGAAATTTAG
1 AGGGAAATTTAG-AATTTAA
60126 AGGGAA
1 AGGGAA
60132 TAGAAAATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
19 29 0.73
20 11 0.28
ACGTcount: A:0.48, C:0.00, G:0.25, T:0.27
Consensus pattern (19 bp):
AGGGAAATTTAGAATTTAA
Found at i:60362 original size:2 final size:2
Alignment explanation
Indices: 60336--60477 Score: 104
Period size: 2 Copynumber: 73.0 Consensus size: 2
60326 TACTTTTAAT
* * * * *
60336 TA TA TG TA TA TG TA TA TA AA CTA TA TA -A AA TA TA TA GTT TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA
* * *
60379 AA T- TA TA -A TT TA TA T- TA -A TA GTA TA TA TA TA TA TA TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
60418 TA TA TA TA -A CTA -A TA TA -A GTA -A TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
60458 TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA
60478 AACACTATGC
Statistics
Matches: 111, Mismatches: 15, Indels: 28
0.72 0.10 0.18
Matches are distributed among these distances:
1 9 0.08
2 96 0.86
3 6 0.05
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (2 bp):
TA
Found at i:60648 original size:20 final size:19
Alignment explanation
Indices: 60625--60683 Score: 75
Period size: 20 Copynumber: 3.1 Consensus size: 19
60615 TACATGTATG
60625 TATAAACCATGTATAGTATA
1 TATAAACCATGTATA-TATA
* *
60645 TATAAACTATATATATATA
1 TATAAACCATGTATATATA
*
60664 TATATA-CATGTATATATA
1 TATAAACCATGTATATATA
60682 TA
1 TA
60684 AATTATATAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
18 12 0.35
19 9 0.26
20 13 0.38
ACGTcount: A:0.47, C:0.07, G:0.05, T:0.41
Consensus pattern (19 bp):
TATAAACCATGTATATATA
Found at i:60677 original size:14 final size:13
Alignment explanation
Indices: 60660--60702 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
60650 ACTATATATA
*
60660 TATATATATACAT
1 TATATATATAAAT
60673 GTATATATATAAAT
1 -TATATATATAAAT
*
60687 TATATAAAGTAAAT
1 TATATATA-TAAAT
60701 TA
1 TA
60703 CTTATATAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 7 0.27
14 19 0.73
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (13 bp):
TATATATATAAAT
Found at i:60710 original size:2 final size:2
Alignment explanation
Indices: 60636--60692 Score: 53
Period size: 2 Copynumber: 28.0 Consensus size: 2
60626 ATAAACCATG
* * *
60636 TA TA GTA TA TA TA AA CTA TA TA TA TA TA TA TA TA CA TG TA TA TA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
60680 TA TA AA T- TA TA TA
1 TA TA TA TA TA TA TA
60693 AAGTAAATTA
Statistics
Matches: 44, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
1 1 0.02
2 40 0.91
3 3 0.07
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.44
Consensus pattern (2 bp):
TA
Found at i:60738 original size:14 final size:14
Alignment explanation
Indices: 60719--60838 Score: 50
Period size: 14 Copynumber: 8.6 Consensus size: 14
60709 TAGTTTATAG
60719 AAACCCTAAATCAT
1 AAACCCTAAATCAT
*
60733 AAACCCTAAA-CTTT
1 AAACCCTAAATC-AT
* *
60747 AAATCATAAAT-ATT
1 AAACCCTAAATCA-T
* *
60761 AAACCCTAAACCCT
1 AAACCCTAAATCAT
* * *
60775 AAACCAT-AACCCT
1 AAACCCTAAATCAT
** *
60788 AAACTTTAAATTAT
1 AAACCCTAAATCAT
**
60802 AAATACTAAAT-ACT
1 AAACCCTAAATCA-T
* *
60816 AAACCCTAAACCTT
1 AAACCCTAAATCAT
60830 AAACCCTAA
1 AAACCCTAA
60839 TATAAATAGA
Statistics
Matches: 78, Mismatches: 21, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
13 13 0.17
14 65 0.83
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (14 bp):
AAACCCTAAATCAT
Found at i:60770 original size:7 final size:7
Alignment explanation
Indices: 60760--60838 Score: 52
Period size: 7 Copynumber: 11.4 Consensus size: 7
60750 TCATAAATAT
60760 TAAACCC
1 TAAACCC
60767 TAAACCC
1 TAAACCC
*
60774 TAAACCA
1 TAAACCC
60781 T-AACCC
1 TAAACCC
**
60787 TAAACTT
1 TAAACCC
***
60794 TAAATTA
1 TAAACCC
**
60801 TAAATAC
1 TAAACCC
**
60808 TAAATAC
1 TAAACCC
60815 TAAACCC
1 TAAACCC
*
60822 TAAACCT
1 TAAACCC
60829 TAAACCC
1 TAAACCC
60836 TAA
1 TAA
60839 TATAAATAGA
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
6 5 0.08
7 54 0.92
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (7 bp):
TAAACCC
Found at i:60770 original size:21 final size:21
Alignment explanation
Indices: 60719--60770 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
60709 TAGTTTATAG
*
60719 AAACCCTAAATCATAAACCCT
1 AAACCCTAAATCATAAACACT
** * *
60740 AAACTTTAAATCATAAATATT
1 AAACCCTAAATCATAAACACT
60761 AAACCCTAAA
1 AAACCCTAAA
60771 CCCTAAACCA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.25
Consensus pattern (21 bp):
AAACCCTAAATCATAAACACT
Found at i:60796 original size:48 final size:49
Alignment explanation
Indices: 60719--60838 Score: 179
Period size: 48 Copynumber: 2.5 Consensus size: 49
60709 TAGTTTATAG
* * *
60719 AAACCCTAAATCATAAACCCTAAACTTTAAATCATAAATATTAAACCCT
1 AAACCCTAAACCATAAACCCTAAACTTTAAATCATAAATACTAAACACT
* *
60768 AAACCCTAAACCAT-AACCCTAAACTTTAAATTATAAATACTAAATACT
1 AAACCCTAAACCATAAACCCTAAACTTTAAATCATAAATACTAAACACT
*
60816 AAACCCTAAACCTTAAACCCTAA
1 AAACCCTAAACCATAAACCCTAA
60839 TATAAATAGA
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
48 43 0.67
49 21 0.33
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (49 bp):
AAACCCTAAACCATAAACCCTAAACTTTAAATCATAAATACTAAACACT
Found at i:62237 original size:19 final size:19
Alignment explanation
Indices: 62213--62261 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
62203 ACAATGTTTT
*
62213 TATGAATAGTACTATACGG
1 TATGAATAGTACTATACGA
*
62232 TATGAATAGTACTATATGA
1 TATGAATAGTACTATACGA
62251 TATGAATAGTA
1 TATGAATAGTA
62262 TCGATATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (19 bp):
TATGAATAGTACTATACGA
Found at i:62983 original size:18 final size:18
Alignment explanation
Indices: 62960--62994 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
62950 CCACTATGAA
*
62960 ATGTCCCGAATGACCACT
1 ATGTCCCGAAGGACCACT
*
62978 ATGTCCTGAAGGACCAC
1 ATGTCCCGAAGGACCAC
62995 GTACAACCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (18 bp):
ATGTCCCGAAGGACCACT
Found at i:63223 original size:2 final size:2
Alignment explanation
Indices: 63218--63243 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
63208 ACACACACAC
63218 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
63244 TATGCATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:64886 original size:21 final size:21
Alignment explanation
Indices: 64861--64935 Score: 150
Period size: 21 Copynumber: 3.6 Consensus size: 21
64851 AAACCATTCA
64861 GGGGGAATCGGTACCCCCTTG
1 GGGGGAATCGGTACCCCCTTG
64882 GGGGGAATCGGTACCCCCTTG
1 GGGGGAATCGGTACCCCCTTG
64903 GGGGGAATCGGTACCCCCTTG
1 GGGGGAATCGGTACCCCCTTG
64924 GGGGGAATCGGT
1 GGGGGAATCGGT
64936 TCCCTCTGGA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.15, C:0.25, G:0.41, T:0.19
Consensus pattern (21 bp):
GGGGGAATCGGTACCCCCTTG
Found at i:65889 original size:18 final size:18
Alignment explanation
Indices: 65868--65906 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
65858 GCATTTGATA
*
65868 CTCTGGACGAGGTTGTTC
1 CTCTGGACGAGCTTGTTC
* *
65886 CTCTGGAGGTGCTTGTTC
1 CTCTGGACGAGCTTGTTC
65904 CTC
1 CTC
65907 GTGCTGCTCC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.08, C:0.26, G:0.31, T:0.36
Consensus pattern (18 bp):
CTCTGGACGAGCTTGTTC
Found at i:74178 original size:13 final size:13
Alignment explanation
Indices: 74146--74172 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
74136 TAATTTACAT
74146 TTAAATAATTTTA
1 TTAAATAATTTTA
74159 TTAAATAATTTTA
1 TTAAATAATTTTA
74172 T
1 T
74173 ATAATATATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTAAATAATTTTA
Found at i:74223 original size:19 final size:19
Alignment explanation
Indices: 74170--74234 Score: 85
Period size: 19 Copynumber: 3.3 Consensus size: 19
74160 TAAATAATTT
*
74170 TATATAATATATGTATAAAC
1 TATAT-ATATATATATAAAC
* *
74190 CATGTATAGTATATATAAAC
1 TATATATA-TATATATAAAC
74210 TATATATATATATATAAAC
1 TATATATATATATATAAAC
74229 TATATA
1 TATATA
74235 AAGTAAATTA
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
19 20 0.51
20 19 0.49
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (19 bp):
TATATATATATATATAAAC
Found at i:74326 original size:49 final size:49
Alignment explanation
Indices: 74223--74326 Score: 129
Period size: 48 Copynumber: 2.1 Consensus size: 49
74213 ATATATATAT
* ** **
74223 ATAAACTATATAAAGTAAATTACTTATATAGTTTATAGAAACACTATGC
1 ATAAACTATATAAAGTAAATAAAGTATATAGTTTATAGAAACACTAACC
*
74272 ATAAACTATATAAAGT-AATAAAGTATATAGTTTATAGAAACCCTAAACC
1 ATAAACTATATAAAGTAAATAAAGTATATAGTTTATAGAAACACT-AACC
*
74321 CTAAAC
1 ATAAAC
74327 ACTAAACTTT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
48 24 0.51
49 23 0.49
ACGTcount: A:0.49, C:0.12, G:0.08, T:0.31
Consensus pattern (49 bp):
ATAAACTATATAAAGTAAATAAAGTATATAGTTTATAGAAACACTAACC
Found at i:74339 original size:21 final size:21
Alignment explanation
Indices: 74315--74354 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
74305 ATAGAAACCC
*
74315 TAAACCCTAAACACTAAACTT
1 TAAACACTAAACACTAAACTT
* *
74336 TAAACATTAAACATTAAAC
1 TAAACACTAAACACTAAAC
74355 CCTGAATCAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.23, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAACACTAAACACTAAACTT
Found at i:74753 original size:20 final size:20
Alignment explanation
Indices: 74721--74770 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
74711 ATTTTATATA
*
74721 ATAT-GTATGTATAAACCAT
1 ATATAGTATATATAAACCAT
* *
74740 GTATAGTATATATAAACTAT
1 ATATAGTATATATAAACCAT
74760 ATATA-TATATA
1 ATATAGTATATA
74771 ACTTATATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 9 0.35
20 17 0.65
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (20 bp):
ATATAGTATATATAAACCAT
Found at i:74768 original size:17 final size:16
Alignment explanation
Indices: 74741--74785 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
74731 ATAAACCATG
74741 TATAGTATATATAAAC-
1 TATA-TATATATAAACT
74757 TATATATATATATAACT
1 TATATATATATA-AACT
*
74774 TATATATTTATA
1 TATATATATATA
74786 TGTTGACTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
15 8 0.31
16 7 0.27
17 11 0.42
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (16 bp):
TATATATATATAAACT
Found at i:74786 original size:17 final size:17
Alignment explanation
Indices: 74741--74785 Score: 58
Period size: 15 Copynumber: 2.7 Consensus size: 17
74731 ATAAACCATG
74741 TATAGTATATATAAACTA
1 TATA-TATATATAAACTA
74759 TATATATATAT-AACT-
1 TATATATATATAAACTA
*
74774 TATATATTTATA
1 TATATATATATA
74786 TGTTGACTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 10 0.40
16 4 0.16
17 7 0.28
18 4 0.16
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (17 bp):
TATATATATATAAACTA
Found at i:75645 original size:45 final size:45
Alignment explanation
Indices: 75504--75654 Score: 150
Period size: 45 Copynumber: 3.4 Consensus size: 45
75494 GGTGCACTAA
* *
75504 GAGTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGCCA-
1 GAGTGCATCGATGCATAAAATGCATTCGATG-TTCAATATATCCAT
* * * ** *
75549 GAGTGCATCGATGCATCAAATGCACT-GA-GTGC-ATGGATGCAT
1 GAGTGCATCGATGCATAAAATGCATTCGATGTTCAATATATCCAT
75591 GGTATGTGCATCGATGCATAAAATGCATTCGATGTTCAATATAATCCAT
1 -G-A-GTGCATCGATGCATAAAATGCATTCGATGTTCAATAT-ATCCAT
75640 G-GTGCATCGATGCAT
1 GAGTGCATCGATGCAT
75655 GGATTGGTGC
Statistics
Matches: 84, Mismatches: 14, Indels: 16
0.74 0.12 0.14
Matches are distributed among these distances:
41 4 0.05
42 2 0.02
43 2 0.02
44 3 0.04
45 60 0.71
46 2 0.02
47 3 0.04
48 3 0.04
49 5 0.06
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (45 bp):
GAGTGCATCGATGCATAAAATGCATTCGATGTTCAATATATCCAT
Found at i:76132 original size:2 final size:2
Alignment explanation
Indices: 76125--76159 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
76115 TTGATTCGAA
76125 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
76160 GCTTAAGCTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:78298 original size:23 final size:22
Alignment explanation
Indices: 78268--78347 Score: 81
Period size: 23 Copynumber: 3.6 Consensus size: 22
78258 GCATGGCCTT
78268 GTGCATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* *
78290 CGTGCATCGGTGCACCTTCAA-G
1 -GTGCATCGATGCACATTCAAGG
* *
78312 ATGTATCGATGCACATTCAAGG
1 GTGCATCGATGCACATTCAAGG
* * *
78334 ATGTATCAATGCAC
1 GTGCATCGATGCAC
78348 TGTTAGGTGC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
21 16 0.33
22 15 0.31
23 18 0.37
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.25
Consensus pattern (22 bp):
GTGCATCGATGCACATTCAAGG
Found at i:78324 original size:21 final size:22
Alignment explanation
Indices: 78272--78347 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 22
78262 GGCCTTGTGC
* *
78272 ATCGATGCACATTCAAGGCGTGC
1 ATCGATGCACATTCAAGG-ATGT
* *
78295 ATCGGTGCACCTTCAA-GATGT
1 ATCGATGCACATTCAAGGATGT
78316 ATCGATGCACATTCAAGGATGT
1 ATCGATGCACATTCAAGGATGT
*
78338 ATCAATGCAC
1 ATCGATGCAC
78348 TGTTAGGTGC
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
21 16 0.36
22 15 0.33
23 14 0.31
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (22 bp):
ATCGATGCACATTCAAGGATGT
Found at i:80823 original size:649 final size:649
Alignment explanation
Indices: 79586--80879 Score: 2399
Period size: 649 Copynumber: 2.0 Consensus size: 649
79576 AAATTTGAAT
79586 TACTAATAAATCTTTACCTTTATGCTTTAAAAACAATGTAGTGTCAACCTTCCCTTTTGAAAAAC
1 TACTAATAAATCTTTACCTTTATGCTTTAAAAACAATGTAGTGTCAACCTTCCCTTTTGAAAAAC
* *
79651 CTTTTTCAATTTAAAAATTTGACAATCTTTCATACCAAGCTCTAGGAGCTTGTTTTAAACCATAA
66 ATGTTTCAATTTAAAAATTTGACAATCTTTCATACCAAGCTCTAGGAGCTTGTTTTAAACCATAA
79716 AGTGCTTTTGTCAATTTAAGAACATGATTTGGAAATTTTAAATCTTCAAAACCAGGAGGTTGTTC
131 AGTGCTTTTGTCAATTTAAGAACATGATTTGGAAATTTTAAATCTTCAAAACCAGGAGGTTGTTC
* *
79781 CACATACACTTCTTCCTTTATAAAACCATTTAAAAAAGCACTTTTAACATCCATTTGATATAATT
196 CACATACACTTCTTCCTTTACAAAACCATTTAAAAAAACACTTTTAACATCCATTTGATATAATT
*
79846 TAAATTCATGAAAACATGCAAATGCTACTAACATTCTAATTGCTTCTATCCTAGCTACGAGAGCG
261 TAAATTCATGAAAACATGCAAATGCTAATAACATTCTAATTGCTTCTATCCTAGCTACGAGAGCG
* *
79911 TATGTTTCATCATAGTCTATGCCTTCTTCTTGAGTATACCCTTGAGCAACAAGTCTAGCCTTATT
326 TATGTTTCATCATAGTCTATGACTTCTTCTTGAGTATACCCTTGAGCAACAAGTCTAGCATTATT
*
79976 TCTCACTATATTACCACTTTCATCAAGCTTATTCCTAAATACCCATCTAGTACCTACAGTAGATT
391 TCTCACTATATTACCACTTTCATAAAGCTTATTCCTAAATACCCATCTAGTACCTACAGTAGATT
* * *
80041 TATTACTAGGCCTTTCAACTAAAGTCCTTACTTTGCTCCTCTCAAATTGATTTAACTCTTCTTGC
456 TATTACTAGGCCTTTCAACTAAAGTACATACTTTACTCCTCTCAAATTGATTTAACTCTTCTTGC
*
80106 ATAGCCATAATCCAATGTTCATCTTTTAATGCTTTTTTAATATTCTTAGGCTCTATGCATGAGAT
521 ATAGCCATAATCCAATGTTCATATTTTAATGCTTTTTTAATATTCTTAGGCTCTATGCATGAGAT
* * *
80171 AATTTCCATATAATTACAAATATTTCTAAGAGAAGATTGATTTGTTACCCCTTTGGATGGGAAC
586 AATTGCCATATAATTACAAATATTTCTAAGAGAAGATCGAGTTGTTACCCCTTTGGATGGGAAC
80235 TACTAATAAATCTTTACCTTTATGCTTTAAAAACAATGTAGTGTCAACCTTCCCTTTTGAAAAAC
1 TACTAATAAATCTTTACCTTTATGCTTTAAAAACAATGTAGTGTCAACCTTCCCTTTTGAAAAAC
* *
80300 ATGTTTCAATTTAAAAATTTGACATTCTTTCATACCACGCTCTAGGAGCTTGTTTTAAACCATAA
66 ATGTTTCAATTTAAAAATTTGACAATCTTTCATACCAAGCTCTAGGAGCTTGTTTTAAACCATAA
80365 AGTGCTTTTGTCAATTTAAGAACATGATTTGGAAATTTTAAATCTTCAAAACCAGGAGGTTGTTC
131 AGTGCTTTTGTCAATTTAAGAACATGATTTGGAAATTTTAAATCTTCAAAACCAGGAGGTTGTTC
80430 CACATACACTTCTTCCTTTACAAAACCATTTAAAAAAACACTTTTAACATCCATTTGATATAATT
196 CACATACACTTCTTCCTTTACAAAACCATTTAAAAAAACACTTTTAACATCCATTTGATATAATT
*
80495 TAAATTCATGAAAACATGCAAATGCTAATAACATTCTAATTGCTTCTATCCTAGCTACGGGAGCG
261 TAAATTCATGAAAACATGCAAATGCTAATAACATTCTAATTGCTTCTATCCTAGCTACGAGAGCG
80560 TATGTTTCATCATAGTCTATGACTTCTTCTTGAGTATACCCTTGAGCAACAAGTCTAGCATTATT
326 TATGTTTCATCATAGTCTATGACTTCTTCTTGAGTATACCCTTGAGCAACAAGTCTAGCATTATT
80625 TCTCACTATATTACCACTTTCATAAAGCTTATTCCTAAATACCCATCTAGTACCTACAGTAGATT
391 TCTCACTATATTACCACTTTCATAAAGCTTATTCCTAAATACCCATCTAGTACCTACAGTAGATT
*
80690 TATTACTAGGCCTTTCAACTAAAGTACATACTTTACTCCTCTCAAATTGGTTTAACTCTTCTTGC
456 TATTACTAGGCCTTTCAACTAAAGTACATACTTTACTCCTCTCAAATTGATTTAACTCTTCTTGC
*
80755 ATAGCCATAATCCAATGTTCATATTTTAATGTTTTTTTAATATTCTTAGGCTCTATGCATGAGAT
521 ATAGCCATAATCCAATGTTCATATTTTAATGCTTTTTTAATATTCTTAGGCTCTATGCATGAGAT
*
80820 AATTGCCATATAATTACAAATATTTCTAAGAGAAGATCGAGTTGTTATCCCTTTGGATGG
586 AATTGCCATATAATTACAAATATTTCTAAGAGAAGATCGAGTTGTTACCCCTTTGGATGG
80880 ATCACCTATA
Statistics
Matches: 624, Mismatches: 21, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
649 624 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (649 bp):
TACTAATAAATCTTTACCTTTATGCTTTAAAAACAATGTAGTGTCAACCTTCCCTTTTGAAAAAC
ATGTTTCAATTTAAAAATTTGACAATCTTTCATACCAAGCTCTAGGAGCTTGTTTTAAACCATAA
AGTGCTTTTGTCAATTTAAGAACATGATTTGGAAATTTTAAATCTTCAAAACCAGGAGGTTGTTC
CACATACACTTCTTCCTTTACAAAACCATTTAAAAAAACACTTTTAACATCCATTTGATATAATT
TAAATTCATGAAAACATGCAAATGCTAATAACATTCTAATTGCTTCTATCCTAGCTACGAGAGCG
TATGTTTCATCATAGTCTATGACTTCTTCTTGAGTATACCCTTGAGCAACAAGTCTAGCATTATT
TCTCACTATATTACCACTTTCATAAAGCTTATTCCTAAATACCCATCTAGTACCTACAGTAGATT
TATTACTAGGCCTTTCAACTAAAGTACATACTTTACTCCTCTCAAATTGATTTAACTCTTCTTGC
ATAGCCATAATCCAATGTTCATATTTTAATGCTTTTTTAATATTCTTAGGCTCTATGCATGAGAT
AATTGCCATATAATTACAAATATTTCTAAGAGAAGATCGAGTTGTTACCCCTTTGGATGGGAAC
Found at i:81999 original size:158 final size:158
Alignment explanation
Indices: 81711--82035 Score: 607
Period size: 158 Copynumber: 2.1 Consensus size: 158
81701 CAAATGCATA
*
81711 TTGTTTTCCACCCAAGCTAGTAGTCCTAGTTGGCCCAAAAAAATCTATATGGATCAGTTGTAATA
1 TTGTTTTCCACCCAAGCTAGTAGTCCTAGTTGGCCCAAAAAAATCTATATGGATCAATTGTAATA
*
81776 CTCTACTAGTTGTTACAACATTAATGGATTTGAAAGAAATTCGCTTTTGTTTTCCTTTAGCACAA
66 CTCTACTAGTTGTTACAACATTAATGGATTTAAAAGAAATTCGCTTTTGTTTTCCTTTAGCACAA
81841 GCATCACAGATTTT-TCATTATCAAATTT
131 GCATCACAGATTTTATCATTATCAAA-TT
*
81869 TTGTTTTCCACCCAAGCTAGTAGTCTTAGTTGGCCCAAAAAAATCTATATGGATCAATTGTAATA
1 TTGTTTTCCACCCAAGCTAGTAGTCCTAGTTGGCCCAAAAAAATCTATATGGATCAATTGTAATA
81934 CTCTACTAGTTGTTACAACATTAATGGATTTAAAAGAAATTCGCTTTTGTTTTCCTTTAGCACAA
66 CTCTACTAGTTGTTACAACATTAATGGATTTAAAAGAAATTCGCTTTTGTTTTCCTTTAGCACAA
81999 GCATCACAGATTTTATCATTATCAAATT
131 GCATCACAGATTTTATCATTATCAAATT
82027 TTGTTTTCC
1 TTGTTTTCC
82036 TATTCTCTGA
Statistics
Matches: 163, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
158 152 0.93
159 11 0.07
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.38
Consensus pattern (158 bp):
TTGTTTTCCACCCAAGCTAGTAGTCCTAGTTGGCCCAAAAAAATCTATATGGATCAATTGTAATA
CTCTACTAGTTGTTACAACATTAATGGATTTAAAAGAAATTCGCTTTTGTTTTCCTTTAGCACAA
GCATCACAGATTTTATCATTATCAAATT
Found at i:82867 original size:22 final size:21
Alignment explanation
Indices: 82827--82866 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
82817 GAGTTTATTT
82827 TCATTTTTCAATTTTAAAATA
1 TCATTTTTCAATTTTAAAATA
82848 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
82867 ACAATTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAATA
Found at i:84839 original size:18 final size:19
Alignment explanation
Indices: 84793--84839 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
84783 GGACCCTTAG
*
84793 TGCATCGATGCACTAAGAG
1 TGCATCGATGCACTAAGAA
84812 TGCATCGATGCA-TAA-AA
1 TGCATCGATGCACTAAGAA
84829 TGCATTCGATG
1 TGCA-TCGATG
84840 TTTCAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 5 0.19
18 9 0.35
19 12 0.46
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (19 bp):
TGCATCGATGCACTAAGAA
Found at i:84862 original size:64 final size:64
Alignment explanation
Indices: 84791--84930 Score: 196
Period size: 64 Copynumber: 2.2 Consensus size: 64
84781 TTGGACCCTT
*
84791 AGTGCATCGATGCACTAAG-A-GTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGT-C
1 AGTGCATCGATGCA-T-AGTATGTGCATCGATGCATAAAATGCATTCGATG-TTCAAAATAATCC
84853 AG
63 AG
* * *
84855 AGTGCATCGATGCATGGTATGTGCATCGATGCATAAAATGCATTCGATGTTCAATATAATCCAT
1 AGTGCATCGATGCATAGTATGTGCATCGATGCATAAAATGCATTCGATGTTCAAAATAATCCAG
84919 AGTGCATCGATG
1 AGTGCATCGATG
84931 TTCAATATAA
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
62 1 0.01
63 11 0.16
64 57 0.83
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (64 bp):
AGTGCATCGATGCATAGTATGTGCATCGATGCATAAAATGCATTCGATGTTCAAAATAATCCAG
Found at i:84932 original size:27 final size:27
Alignment explanation
Indices: 84893--84954 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
84883 ATGCATAAAA
*
84893 TGCATTCGATGTTCAATATAATCCATAG
1 TGCA-TCGATGTTCAATATAACCCATAG
*
84921 TGCATCGATGTTCAATATAACCCATGG
1 TGCATCGATGTTCAATATAACCCATAG
84948 TGCATCG
1 TGCATCG
84955 GTGCATCAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 28 0.88
28 4 0.12
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (27 bp):
TGCATCGATGTTCAATATAACCCATAG
Found at i:85046 original size:18 final size:19
Alignment explanation
Indices: 85000--85046 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
84990 GGACCCTTAG
*
85000 TGCATCGATGCACTAAGAG
1 TGCATCGATGCACTAAGAA
85019 TGCATCGATGCA-TAA-AA
1 TGCATCGATGCACTAAGAA
85036 TGCATTCGATG
1 TGCA-TCGATG
85047 TTTCAAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 5 0.19
18 9 0.35
19 12 0.46
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (19 bp):
TGCATCGATGCACTAAGAA
Found at i:85079 original size:45 final size:45
Alignment explanation
Indices: 85015--85121 Score: 164
Period size: 45 Copynumber: 2.4 Consensus size: 45
85005 CGATGCACTA
*
85015 AGAGTGCATCGATGCATAAAATGCATTCGATGTTTCAAAATAGT-C
1 AGAGTGCATCGATGCATAAAATGCATTCGATG-TTCAAAATAATCC
*
85060 AGAGTGCATCGATGCATAAAATGCATTCGATGTTCAATATAATCC
1 AGAGTGCATCGATGCATAAAATGCATTCGATGTTCAAAATAATCC
85105 ATG-GTGCATCGATGCAT
1 A-GAGTGCATCGATGCAT
85122 GGATTGGTGC
Statistics
Matches: 58, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
44 9 0.16
45 48 0.83
46 1 0.02
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (45 bp):
AGAGTGCATCGATGCATAAAATGCATTCGATGTTCAAAATAATCC
Found at i:85505 original size:14 final size:14
Alignment explanation
Indices: 85482--85554 Score: 60
Period size: 14 Copynumber: 5.2 Consensus size: 14
85472 ATAGTTTATA
*
85482 TAAACCCTAAACCC
1 TAAACACTAAACCC
**
85496 TAAACACTAAACTT
1 TAAACACTAAACCC
*
85510 TAAAC-CATAAACAC
1 TAAACAC-TAAACCC
* *
85524 TAAACATTAAACCT
1 TAAACACTAAACCC
85538 TAAATCAC-AAACCC
1 TAAA-CACTAAACCC
85552 TAA
1 TAA
85555 TATAAATGAC
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
13 1 0.02
14 43 0.93
15 2 0.04
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.21
Consensus pattern (14 bp):
TAAACACTAAACCC
Found at i:85513 original size:21 final size:21
Alignment explanation
Indices: 85489--85549 Score: 79
Period size: 21 Copynumber: 2.9 Consensus size: 21
85479 ATATAAACCC
* *
85489 TAAACCCTAAACACTAAACTT
1 TAAACCATAAACACTAAACAT
85510 TAAACCATAAACACTAAACAT
1 TAAACCATAAACACTAAACAT
*
85531 TAAACCTTAAATCAC-AAAC
1 TAAACCATAAA-CACTAAAC
85550 CCTAATATAA
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 33 0.92
22 3 0.08
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.21
Consensus pattern (21 bp):
TAAACCATAAACACTAAACAT
Found at i:85949 original size:17 final size:15
Alignment explanation
Indices: 85922--85982 Score: 70
Period size: 15 Copynumber: 3.9 Consensus size: 15
85912 ATAAACCATG
85922 TATAGTATATATAAAC
1 TATA-TATATATAAAC
*
85938 TATATATATATAACC
1 TATATATATATAAAC
*
85953 TATATATATATATA-
1 TATATATATATAAAC
85967 TATATAACTATATAAA
1 TATAT-A-TATATAAA
85983 GTAAATTACT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
14 5 0.13
15 23 0.59
16 11 0.28
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.41
Consensus pattern (15 bp):
TATATATATATAAAC
Found at i:85980 original size:2 final size:2
Alignment explanation
Indices: 85922--85972 Score: 50
Period size: 2 Copynumber: 25.0 Consensus size: 2
85912 ATAAACCATG
* **
85922 TA TA GTA TA TA TA AA CTA TA TA TA TA TA -A CC TA TA TA TA TA TA
1 TA TA -TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
85965 TA TA TA TA
1 TA TA TA TA
85973 ACTATATAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
1 1 0.02
2 37 0.90
3 3 0.07
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (2 bp):
TA
Found at i:86084 original size:21 final size:21
Alignment explanation
Indices: 86060--86100 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
86050 ATATAAATCC
*
86060 TAAACCCTAAACT-TTAAACCA
1 TAAACACTAAA-TATTAAACCA
86081 TAAACACTAAATATTAAACC
1 TAAACACTAAATATTAAACC
86101 CTAATGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.24
Consensus pattern (21 bp):
TAAACACTAAATATTAAACCA
Found at i:86134 original size:2 final size:2
Alignment explanation
Indices: 86127--86156 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
86117 GCACTAATGC
86127 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
86157 TTGTAATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:86259 original size:570 final size:568
Alignment explanation
Indices: 85389--86476 Score: 1814
Period size: 570 Copynumber: 1.9 Consensus size: 568
85379 GTTTTGAACA
85389 ATATATATATATAACTATATAAAGTAAATTACTTATATATTTTATAGAAACACAATGCATAAACT
1 ATATATATATATAACTATATAAAGTAAATTACTTATATATTTTATAGAAACACAATGCATAAACT
85454 ATATAAATAATAAATTATATAGTTTATATAAACCCTAAACCCTAAACACTAAACTTTAAACCATA
66 ATATAAATAATAAATTATATAGTTTATATAAA--CT--A-CCTAAACACTAAACTTTAAACCATA
* *
85519 AACACTAAACATTAAACCTTAAATCACAAACCCTAATATAAATGACTAGCACTAATGCATATATA
126 AACACTAAACATTAAACCTTAAATCACAAACACTAATATAAATGACTAGCACTAATACATATATA
*
85584 TATTTGTAATAAAAGAGTGGGCTTATGTATTATGCCTATGTAAACTAATGTAAATGGACTAGCAC
191 TATTTGTAATAAAAGAGTGAGCTTATGTATTATGCCTATGTAAACTAATGTAAATGGACTAGCAC
85649 TAATGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATAAATGGGCT
256 TAATGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATAAATGGGCT
* *
85714 ATTAATGTGAAATAACCTAACATGCAACTAAAATACTAATTATGCAAATGAAATTAATATGACAT
321 ATTAATGTGAAATAACCCAACATGCAACTAAAATACTAATTATGAAAATGAAATTAATATGACAT
85779 GTACTACTATTTATGAACCATATAATATGCAATGTGACAT-CTAATTATTTAACACCTAATTAAT
386 GTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAATTAAT
85843 CATGTTTTATATAATTTACA-TTAAATAATATTATTAATTTTATTAAATAATTTTATATAATATG
451 CATGTTTTATATAATTTACATTTAAATAATATTATTAATTTTATTAAATAATTTTATATAATATG
85907 TATGTATAAACCATGTATAGTATATATAAACTATATATATATAACCTATATAT
516 TATGTATAAACCATGTATAGTATATATAAACTATATATATATAACCTATATAT
85960 ATATATATATATAACTATATAAAGTAAATTACTTATATATTTTATAGAAACACAATGCATAAACT
1 ATATATATATATAACTATATAAAGTAAATTACTTATATATTTTATAGAAACACAATGCATAAACT
*
86025 ATATAAATAATAAATTATATAGTTTATATAAA-T-CCTAAACCCTAAACTTTAAACCATAAACAC
66 ATATAAATAATAAATTATATAGTTTATATAAACTACCTAAACACTAAACTTTAAACCATAAACAC
* * * * * *
86088 TAAATATTAAACCCTAATGTAAATGACTAGCACTAATGCATATATAT-A-TA-TA-TATATATAT
131 TAAACATTAAA-CC---T-TAAATCACAAACACTAAT--ATA-A-ATGACTAGCACTA-ATACAT
*
86149 ATATATATTTGTAATAAAAGAGTGAGCTTATGTATTGTGCCTATGTAAACTAATGTAAATGGACT
186 ATATATATTTGTAATAAAAGAGTGAGCTTATGTATTATGCCTATGTAAACTAATGTAAATGGACT
86214 AGCACTAATGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATAAAT
251 AGCACTAATGCAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATAAAT
86279 GGGCTATTAATGTGAAATAACCCAACATGCAACTAAAATACTAATTATGAAAATGAAATTAATAT
316 GGGCTATTAATGTGAAATAACCCAACATGCAACTAAAATACTAATTATGAAAATGAAATTAATAT
* *
86344 TACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAG
381 GACATGTACTACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAA
* * * *
86409 TTAATCATGTTTTATATAATTTACATTTAAATAATTTTATTACTTTTATTAGATAATTTTTTATA
446 TTAATCATGTTTTATATAATTTACATTTAAATAATATTATTAATTTTATTAAATAATTTTATATA
86474 ATA
511 ATA
86477 GGTCTATTTA
Statistics
Matches: 486, Mismatches: 19, Indels: 23
0.92 0.04 0.04
Matches are distributed among these distances:
564 39 0.08
565 2 0.00
568 2 0.00
569 16 0.03
570 240 0.49
571 145 0.30
572 40 0.08
573 2 0.00
ACGTcount: A:0.43, C:0.12, G:0.08, T:0.37
Consensus pattern (568 bp):
ATATATATATATAACTATATAAAGTAAATTACTTATATATTTTATAGAAACACAATGCATAAACT
ATATAAATAATAAATTATATAGTTTATATAAACTACCTAAACACTAAACTTTAAACCATAAACAC
TAAACATTAAACCTTAAATCACAAACACTAATATAAATGACTAGCACTAATACATATATATATTT
GTAATAAAAGAGTGAGCTTATGTATTATGCCTATGTAAACTAATGTAAATGGACTAGCACTAATG
CAAATGGACTTATTTTTGGGTTTTATTATTACTTATTCATAACAACAAAATAAATGGGCTATTAA
TGTGAAATAACCCAACATGCAACTAAAATACTAATTATGAAAATGAAATTAATATGACATGTACT
ACTATTTATGAACCATATAATATGCAATGTGACATACTAATTATTTAACACCTAATTAATCATGT
TTTATATAATTTACATTTAAATAATATTATTAATTTTATTAAATAATTTTATATAATATGTATGT
ATAAACCATGTATAGTATATATAAACTATATATATATAACCTATATAT
Found at i:86637 original size:16 final size:16
Alignment explanation
Indices: 86609--86650 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
86599 TTCATCCATG
86609 GTAATATAT-AAGTCAA
1 GTAA-ATATCAAGTCAA
*
86625 GTAAATATCAAGTCAG
1 GTAAATATCAAGTCAA
86641 GTAAATATCA
1 GTAAATATCA
86651 GATCATGTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 4 0.17
16 20 0.83
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.29
Consensus pattern (16 bp):
GTAAATATCAAGTCAA
Found at i:87799 original size:18 final size:16
Alignment explanation
Indices: 87770--87809 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 16
87760 CTATCTCTCT
87770 AAAAAAATAAAAAATG
1 AAAAAAATAAAAAATG
87786 AAAAAATATAAAAAAATG
1 AAAAAA-AT-AAAAAATG
87804 AAAAAA
1 AAAAAA
87810 GTTGGTACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 6 0.27
17 2 0.09
18 14 0.64
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.12
Consensus pattern (16 bp):
AAAAAAATAAAAAATG
Found at i:92118 original size:11 final size:12
Alignment explanation
Indices: 92104--92133 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
92094 AAAAGATATA
92104 GAAAAAAA-AAG
1 GAAAAAAAGAAG
92115 GAAAAAAAGAAG
1 GAAAAAAAGAAG
92127 GAAAAAA
1 GAAAAAA
92134 TAAAAAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 8 0.44
12 10 0.56
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
GAAAAAAAGAAG
Found at i:92122 original size:14 final size:14
Alignment explanation
Indices: 92105--92163 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 14
92095 AAAGATATAG
92105 AAAAAAAAAGG--A
1 AAAAAAAAAGGAAA
*
92117 AAAAAAGAAGGAAA
1 AAAAAAAAAGGAAA
*
92131 AAATAAAAAGAGAAA
1 AAAAAAAAAG-GAAA
** *
92146 AATTAAAAATGAAA
1 AAAAAAAAAGGAAA
92160 AAAA
1 AAAA
92164 TAAGAAATAA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
12 10 0.27
14 15 0.41
15 12 0.32
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.07
Consensus pattern (14 bp):
AAAAAAAAAGGAAA
Found at i:92171 original size:16 final size:16
Alignment explanation
Indices: 92127--92177 Score: 61
Period size: 15 Copynumber: 3.2 Consensus size: 16
92117 AAAAAAGAAG
92127 GAAAAAATAAAAA-GA
1 GAAAAAATAAAAATGA
*
92142 GAAAAATTAAAAATGA
1 GAAAAAATAAAAATGA
*
92158 -AAAAAATAAGAAATAA
1 GAAAAAATAA-AAATGA
92174 GAAA
1 GAAA
92178 TACAAAGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
15 20 0.67
16 7 0.23
17 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (16 bp):
GAAAAAATAAAAATGA
Found at i:92873 original size:2 final size:2
Alignment explanation
Indices: 92866--92896 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
92856 TGAAACACAT
92866 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
92897 TGATATTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:95067 original size:26 final size:26
Alignment explanation
Indices: 95038--95089 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
95028 GGTCTTTCCC
95038 CGCCCAGACGAAAAACGGTGTCGACA
1 CGCCCAGACGAAAAACGGTGTCGACA
*
95064 CGCCCAGGCGAAAAACGGTGTCGACA
1 CGCCCAGACGAAAAACGGTGTCGACA
95090 TGGTTCATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.33, C:0.31, G:0.29, T:0.08
Consensus pattern (26 bp):
CGCCCAGACGAAAAACGGTGTCGACA
Found at i:97080 original size:3 final size:3
Alignment explanation
Indices: 96998--97067 Score: 90
Period size: 3 Copynumber: 23.7 Consensus size: 3
96988 TTCATTTTAA
* *
96998 TAT TAT T-T ATAT TAT TAT TAT TAT AAT AAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
97043 TAT TAT TAT TTT TAT T-T TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
97068 ATAAATATTA
Statistics
Matches: 60, Mismatches: 4, Indels: 6
0.86 0.06 0.09
Matches are distributed among these distances:
2 3 0.05
3 56 0.93
4 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:98309 original size:15 final size:15
Alignment explanation
Indices: 98267--98308 Score: 75
Period size: 15 Copynumber: 2.7 Consensus size: 15
98257 TGTAAATTAG
98267 ATATTTAATTTTAAT
1 ATATTTAATTTTAAT
98282 ATATTTAATTTTAAT
1 ATATTTAATTTTAAT
98297 ATATTTTAATTT
1 ATA-TTTAATTT
98309 AGTCATTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 18 0.69
16 8 0.31
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATATTTAATTTTAAT
Found at i:98584 original size:21 final size:19
Alignment explanation
Indices: 98560--98600 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
98550 TATCCTGGAA
98560 AATATATATTAATTTTTTATT
1 AATATATATT--TTTTTTATT
*
98581 AATATTTATTTTTTTTATT
1 AATATATATTTTTTTTATT
98600 A
1 A
98601 TTAAAGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 10 0.53
21 9 0.47
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
AATATATATTTTTTTTATT
Found at i:109808 original size:22 final size:22
Alignment explanation
Indices: 109783--109829 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 22
109773 TATTATGCTT
109783 AAAGAAAACAA-AAATG-AAGAAA
1 AAAGAAAA-AAGAAA-GAAAGAAA
109805 AAAGAAAAAAGAAAGAAAGAAA
1 AAAGAAAAAAGAAAGAAAGAAA
109827 AAA
1 AAA
109830 ATGTTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 3 0.13
22 20 0.87
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.02
Consensus pattern (22 bp):
AAAGAAAAAAGAAAGAAAGAAA
Found at i:109823 original size:8 final size:7
Alignment explanation
Indices: 109799--109829 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
109789 AACAAAAATG
109799 AAGAAAA
1 AAGAAAA
109806 AAGAAAA
1 AAGAAAA
109813 AAGAAAGA
1 AAGAAA-A
109821 AAGAAAA
1 AAGAAAA
109828 AA
1 AA
109830 ATGTTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:111193 original size:20 final size:22
Alignment explanation
Indices: 111152--111204 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
111142 TCTACATCTT
111152 CAAAGATGATAGATTATCTCTC
1 CAAAGATGATAGATTATCTCTC
* *
111174 CAAAGATGATAGATTCTCTCTT
1 CAAAGATGATAGATTATCTCTC
*
111196 TAAAGATGA
1 CAAAGATGA
111205 AAGTTTTATT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.32
Consensus pattern (22 bp):
CAAAGATGATAGATTATCTCTC
Found at i:111730 original size:113 final size:113
Alignment explanation
Indices: 111574--112225 Score: 844
Period size: 113 Copynumber: 5.9 Consensus size: 113
111564 TGAATCCATT
* * * * *
111574 ACTCAATGGATCAACA-TGCCAG-GTAGAGTTCATAATGAGAAGAACTCATTTGAAGAAAGAAGA
1 ACTCGATGGATCAGCATTGCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
111637 AGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATC
65 AGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATC
* * *
111686 ACCCGATGGATTAGCATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAG
1 ACTCGATGGATCAGCATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
** *
111751 GAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTCAAATCCATC
66 GAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATC
* *
111799 ACTTGATGAATCAGCATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
1 ACTCGATGGATCAGCATTGCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
* *
111863 AGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTTGAATTCATC
65 AGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATC
* * * *
111912 ACTCGATGGATCAACATTTCCAAAAAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
1 ACTCGATGGATCAGCATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
* * * *
111977 GAAGTTCCTAATGAGAAGAGCTTGTTCAACCCTTTG-TTTGAATTCACC
66 GAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTT-AATTCATC
* * * * * *
112025 ATTTGATGGATCAGCGTTACCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
1 ACTCGATGGATCAGCATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
* *
112090 GAAATTCATAATGAGAAGAATTTGTTCAA-C---T--TTT--TTCATC
66 GAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATC
* * * * * *
112130 ACTCGATGGATAAACTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAA-GAAGAG
1 ACTCGATGGATCAGCATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
*
112194 GAAGTTCATAATGAGAAGAGCTTGTTCAACCT
66 GAAGTTCATAATGAGAAGAACTTGTTCAACCT
112226 CTTGTATAAT
Statistics
Matches: 475, Mismatches: 58, Indels: 20
0.86 0.10 0.04
Matches are distributed among these distances:
104 31 0.07
105 55 0.12
108 3 0.01
109 1 0.00
112 16 0.03
113 368 0.77
114 1 0.00
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (113 bp):
ACTCGATGGATCAGCATTGCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAA
GAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTTAATTCATC
Found at i:111991 original size:226 final size:225
Alignment explanation
Indices: 111590--112225 Score: 946
Period size: 226 Copynumber: 2.9 Consensus size: 225
111580 TGGATCAACA
* *
111590 TGCCAGGTAGAGTTCATAATGAGAAGAACTCATTTGAAGAAAGAAGAAGAAGTTCATAATGAGAA
1 TGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAA
* * * * *
111655 GAACTTGTTCAACCTTTTGCTTTAATTCATCACCCGATGGATTAGCATTGCCAGAGAAAGTTCAT
66 GAATTTGTTCAACCTTTTGC-TTAATTCATCACTCGATGGATAAACATTTCCAGAGAAAGTTCAT
*
111720 AATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAGTTCATAATGAGAAGAACTTGTTCAACCTTT
130 AATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
*
111785 TGCTCAAATCCATCACTTGATGAATCAGCAT
195 TGCTCAAATCCACCACTTGATGAATCAGCAT
*
111816 TGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAA
1 TGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAA
* * *
111881 GAATTTGTTCAACCTTTTGCTTGAATTCATCACTCGATGGATCAACATTTCCAAAAAAAGTTCAT
66 GAATTTGTTCAACCTTTTGCTT-AATTCATCACTCGATGGATAAACATTTCCAGAGAAAGTTCAT
* * *
111946 AATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCCTAATGAGAAGAGCTTGTTCAACCCTT
130 AATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTT
* ** * * * *
112011 TGTTTGAATTCACCATTTGATGGATCAGCGT
195 TGCTCAAATCCACCACTTGATGAATCAGCAT
* * *
112042 TACCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATGAGAA
1 TGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAA
*
112107 GAATTTGTTCAA-C--TT--TT--TTCATCACTCGATGGATAAACTTTTCCAGAGAAAGTTCATA
66 GAATTTGTTCAACCTTTTGCTTAATTCATCACTCGATGGATAAACATTTCCAGAGAAAGTTCATA
*
112165 ATAAGAAGAACTCATCTGAAGAA-GAAGAGGAAGTTCATAATGAGAAGAGCTTGTTCAACCT
131 ATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAGTTCATAATGAGAAGAGCTTGTTCAACCT
112226 CTTGTATAAT
Statistics
Matches: 375, Mismatches: 34, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
217 35 0.09
218 59 0.16
221 2 0.01
223 2 0.01
225 3 0.01
226 274 0.73
ACGTcount: A:0.38, C:0.15, G:0.20, T:0.27
Consensus pattern (225 bp):
TGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAA
GAATTTGTTCAACCTTTTGCTTAATTCATCACTCGATGGATAAACATTTCCAGAGAAAGTTCATA
ATGAGAAGAACTCATCTGAAGAAGGAAGAGGAAGTTCATAATGAGAAGAGCTTGTTCAACCTTTT
GCTCAAATCCACCACTTGATGAATCAGCAT
Found at i:112566 original size:12 final size:12
Alignment explanation
Indices: 112549--112624 Score: 54
Period size: 12 Copynumber: 6.4 Consensus size: 12
112539 TTCATTTGAA
112549 TATTATTTATAT
1 TATTATTTATAT
112561 TATTATAATTATTAT
1 TATTAT--TTA-TAT
*
112576 AATTA-TTATAAT
1 TATTATTTAT-AT
112588 TATTATTT-T-T
1 TATTATTTATAT
*
112598 T-TTATTTTTAT
1 TATTATTTATAT
*
112609 TTTTATTT-TAT
1 TATTATTTATAT
112620 TATTA
1 TATTA
112625 ATAAATATTA
Statistics
Matches: 53, Mismatches: 3, Indels: 17
0.73 0.04 0.23
Matches are distributed among these distances:
9 6 0.11
10 3 0.06
11 10 0.19
12 22 0.42
13 2 0.04
14 3 0.06
15 7 0.13
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATTATTTATAT
Found at i:112592 original size:18 final size:19
Alignment explanation
Indices: 112550--112593 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 19
112540 TCATTTGAAT
112550 ATTATT-TATATTATTATA
1 ATTATTATATATTATTATA
112568 ATTATTATA-ATTATTATA
1 ATTATTATATATTATTATA
112586 ATTATTAT
1 ATTATTAT
112594 TTTTTTTATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 23 0.92
19 2 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (19 bp):
ATTATTATATATTATTATA
Found at i:118565 original size:3 final size:3
Alignment explanation
Indices: 118559--118585 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
118549 GTGGTAGTAG
118559 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
118586 CTACTATTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:119975 original size:16 final size:17
Alignment explanation
Indices: 119935--119978 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
119925 TTTTTTCTAA
* *
119935 TTATTTTATTTCATATT
1 TTATTTTAATCCATATT
119952 TTATTTTTAATCCAT-TT
1 TTA-TTTTAATCCATATT
119969 TTATTTTAAT
1 TTATTTTAAT
119979 ATTTATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.29
17 8 0.33
18 9 0.38
ACGTcount: A:0.25, C:0.07, G:0.00, T:0.68
Consensus pattern (17 bp):
TTATTTTAATCCATATT
Found at i:120250 original size:19 final size:20
Alignment explanation
Indices: 120203--120258 Score: 69
Period size: 19 Copynumber: 2.8 Consensus size: 20
120193 GACTACACTT
* *
120203 CTTTTTATTTATAATCTTCTA
1 CTTTTTATTTAT-TTCATCTA
120224 CATTTTTATTTATTTCAT-TA
1 C-TTTTTATTTATTTCATCTA
120244 CTTTTTATTTATTTC
1 CTTTTTATTTATTTC
120259 TTTCTTAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 14 0.44
20 3 0.09
21 4 0.12
22 11 0.34
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.66
Consensus pattern (20 bp):
CTTTTTATTTATTTCATCTA
Found at i:124860 original size:162 final size:167
Alignment explanation
Indices: 124671--124990 Score: 569
Period size: 162 Copynumber: 1.9 Consensus size: 167
124661 TCTATGTGTC
*
124671 ATTAATCTCCTAGTAAGGACATCAAACCTGTTATAGTCGAGTTTTATGAATACAATTATATTCAG
1 ATTAATCTCCTAGTAAGGACATCAAACCTGTTATAGTAGAGTTTTATGAATACAATTATATTCAG
124736 ATCATGACACTAGTCTCTATGTGTCGAGATGACTAAAATTATATTCAG-A-TCATGTCTAAACCA
66 ATCATGACACTAGTCTCTATGTGTCGAGATGACTAAAATTATATTCAGAAGTCATGTCTAAACCA
124799 -TTATGGA-GTAATATTCGAGCTTTCTATGTGTCAAG
131 GTTATGGAGGTAATATTCGAGCTTTCTATGTGTCAAG
124834 ATTAATCTCC-AGTAAGGACATCAAACCTGTTATAGTAGAGTTTTATGAATACAATTATATTCAG
1 ATTAATCTCCTAGTAAGGACATCAAACCTGTTATAGTAGAGTTTTATGAATACAATTATATTCAG
124898 ATCATGACACTAGTCTCTATGTGTCGAGATGACTAAAATTATATTCAGATCATGTCATGTCTAAA
66 ATCATGACACTAGTCTCTATGTGTCGAGATGACTAAAATTATATTCAGA--A-GTCATGTCTAAA
124963 CCAGTTATGGAGGTAATATTCGAGCTTT
128 CCAGTTATGGAGGTAATATTCGAGCTTT
124991 ATGAAGTGAA
Statistics
Matches: 149, Mismatches: 1, Indels: 8
0.94 0.01 0.05
Matches are distributed among these distances:
162 101 0.68
163 10 0.07
165 1 0.01
167 14 0.09
168 7 0.05
169 16 0.11
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (167 bp):
ATTAATCTCCTAGTAAGGACATCAAACCTGTTATAGTAGAGTTTTATGAATACAATTATATTCAG
ATCATGACACTAGTCTCTATGTGTCGAGATGACTAAAATTATATTCAGAAGTCATGTCTAAACCA
GTTATGGAGGTAATATTCGAGCTTTCTATGTGTCAAG
Found at i:130554 original size:20 final size:20
Alignment explanation
Indices: 130517--130556 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
130507 GTTGCTGGGG
* *
130517 ATTGTCAATTGATAAAATTT
1 ATTGGCAATTGACAAAATTT
*
130537 ATTGGCAATTGACGAAATTT
1 ATTGGCAATTGACAAAATTT
130557 TAAGTTCTTT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.40
Consensus pattern (20 bp):
ATTGGCAATTGACAAAATTT
Found at i:131118 original size:20 final size:20
Alignment explanation
Indices: 131095--131138 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
131085 TGGCTCAGCA
131095 GAGTTCCTTCCAGCTCAATG
1 GAGTTCCTTCCAGCTCAATG
**
131115 GAGTTCCTTCTGGCTCAATG
1 GAGTTCCTTCCAGCTCAATG
131135 GAGT
1 GAGT
131139 CATAGGCAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.18, C:0.25, G:0.25, T:0.32
Consensus pattern (20 bp):
GAGTTCCTTCCAGCTCAATG
Found at i:131969 original size:21 final size:20
Alignment explanation
Indices: 131941--131979 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
131931 CATTGCAGGA
*
131941 ATTTATGGCCTCGACAAAAG
1 ATTTATGGCCTCCACAAAAG
*
131961 ATTTCATGGCTTCCACAAA
1 ATTT-ATGGCCTCCACAAA
131980 GACTTTGATG
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.28
Consensus pattern (20 bp):
ATTTATGGCCTCCACAAAAG
Found at i:135029 original size:18 final size:18
Alignment explanation
Indices: 135008--135062 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 18
134998 GATATAGCAA
*
135008 AAAATACATAAAAAAGAG
1 AAAATAAATAAAAAAGAG
*
135026 AAAATAAATAAAGAAGA-
1 AAAATAAATAAAAAAGAG
135043 AAGAA-AAA-AAAAAA-AG
1 AA-AATAAATAAAAAAGAG
135059 AAAA
1 AAAA
135063 AGAAGAAAGC
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
15 3 0.09
16 7 0.22
17 5 0.16
18 17 0.53
ACGTcount: A:0.80, C:0.02, G:0.11, T:0.07
Consensus pattern (18 bp):
AAAATAAATAAAAAAGAG
Found at i:135045 original size:7 final size:7
Alignment explanation
Indices: 135035--135127 Score: 86
Period size: 7 Copynumber: 13.9 Consensus size: 7
135025 GAAAATAAAT
135035 AAAGAAG
1 AAAGAAG
135042 AAAGAA-
1 AAAGAAG
* *
135048 AAAAAAA
1 AAAGAAG
135055 AAAGAA-
1 AAAGAAG
135061 AAAGAAG
1 AAAGAAG
*
135068 AAAGCAG
1 AAAGAAG
135075 AAAGAAG
1 AAAGAAG
* *
135082 AAAGCAT
1 AAAGAAG
*
135089 AAAGAAT
1 AAAGAAG
*
135096 AAAGAAT
1 AAAGAAG
135103 AAAGAAG
1 AAAGAAG
135110 -AA-AAG
1 AAAGAAG
*
135115 AAAGAAA
1 AAAGAAG
135122 AAAGAA
1 AAAGAA
135128 AATCGATCAA
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
5 3 0.04
6 15 0.21
7 55 0.75
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.03
Consensus pattern (7 bp):
AAAGAAG
Found at i:135045 original size:22 final size:20
Alignment explanation
Indices: 135018--135070 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 20
135008 AAAATACATA
*
135018 AAAAAGAGAAAATAAATAAAG
1 AAAAAGAGAAAA-AAAAAAAG
135039 AAGAAAGA-AAAAAAAAAAAG
1 AA-AAAGAGAAAAAAAAAAAG
135059 AAAAAGAAGAAA
1 AAAAAG-AGAAA
135071 GCAGAAAGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 4 0.14
20 10 0.36
21 9 0.32
22 5 0.18
ACGTcount: A:0.81, C:0.00, G:0.15, T:0.04
Consensus pattern (20 bp):
AAAAAGAGAAAAAAAAAAAG
Found at i:135092 original size:21 final size:20
Alignment explanation
Indices: 135035--135129 Score: 86
Period size: 19 Copynumber: 4.8 Consensus size: 20
135025 GAAAATAAAT
* *
135035 AAAGAAGAAAGAAAAAAAAA
1 AAAGAAGAAAGAAAAAGAAG
*
135055 AAAGAA-AAAGAAGAAAGCAG
1 AAAGAAGAAAGAA-AAAGAAG
* *
135075 AAAGAAGAAAGCATAAAGAAT
1 AAAGAAGAAAG-AAAAAGAAG
* *
135096 AAAGAATAAAGAAGAA-AAG
1 AAAGAAGAAAGAAAAAGAAG
*
135115 AAAGAAAAAAGAAAA
1 AAAGAAGAAAGAAAA
135130 TCGATCAAAT
Statistics
Matches: 60, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
19 21 0.35
20 19 0.32
21 19 0.32
22 1 0.02
ACGTcount: A:0.76, C:0.02, G:0.19, T:0.03
Consensus pattern (20 bp):
AAAGAAGAAAGAAAAAGAAG
Found at i:135128 original size:7 final size:7
Alignment explanation
Indices: 135017--135129 Score: 74
Period size: 7 Copynumber: 16.6 Consensus size: 7
135007 AAAAATACAT
135017 AAAAAAG
1 AAAAAAG
* *
135024 AGAAAAT
1 AAAAAAG
135031 AAATAAAG
1 AAA-AAAG
*
135039 AAGAAAG
1 AAAAAAG
135046 AAAAAA-
1 AAAAAAG
135052 AAAAAAG
1 AAAAAAG
135059 -AAAAAG
1 AAAAAAG
*
135065 AAGAAAG
1 AAAAAAG
* *
135072 CAGAAAG
1 AAAAAAG
*
135079 AAGAAAG
1 AAAAAAG
* *
135086 CATAAAG
1 AAAAAAG
*
135093 AATAAAG
1 AAAAAAG
*
135100 AATAAAG
1 AAAAAAG
135107 AAGAAAAG
1 AA-AAAAG
135115 ---AAAG
1 AAAAAAG
135119 AAAAAAG
1 AAAAAAG
135126 AAAA
1 AAAA
135130 TCGATCAAAT
Statistics
Matches: 86, Mismatches: 13, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
4 4 0.05
6 12 0.14
7 61 0.71
8 9 0.10
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.04
Consensus pattern (7 bp):
AAAAAAG
Found at i:136232 original size:18 final size:17
Alignment explanation
Indices: 136197--136231 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
136187 ACAAAACACG
136197 TAAAAAAATAATAAAAA
1 TAAAAAAATAATAAAAA
136214 TAAACAAAATGAATAAAA
1 TAAA-AAAAT-AATAAAA
136232 TGTTAAAAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 5 0.31
19 7 0.44
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (17 bp):
TAAAAAAATAATAAAAA
Found at i:136439 original size:16 final size:15
Alignment explanation
Indices: 136420--136476 Score: 53
Period size: 16 Copynumber: 3.8 Consensus size: 15
136410 AAAAAATAGA
136420 AAAAATAAAATAAAGT
1 AAAAATAAAATAAA-T
* *
136436 AAAAATATAATATAT
1 AAAAATAAAATAAAT
* *
136451 ATAAATAAAA-AAAC
1 AAAAATAAAATAAAT
*
136465 AAAAATAGAATA
1 AAAAATAAAATA
136477 TTAAGAATAT
Statistics
Matches: 32, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
14 10 0.31
15 10 0.31
16 12 0.38
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.21
Consensus pattern (15 bp):
AAAAATAAAATAAAT
Found at i:136470 original size:40 final size:40
Alignment explanation
Indices: 136413--136503 Score: 98
Period size: 42 Copynumber: 2.2 Consensus size: 40
136403 TTAAGGAAAA
*
136413 AAATAGAAAAAATAAAATA-AAGTA-AA-AATATAATATATAT
1 AAATA-AAAAAAAAAAATAGAA-TATAAGAATAT-ATATATAT
136453 AAATAAAAAAACAAAAATAGAATATTAAGAATATATATATAT
1 AAATAAAAAAA-AAAAATAGAATA-TAAGAATATATATATAT
*
136495 ATATAAAAA
1 AAATAAAAA
136504 TGTATAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
39 6 0.14
40 13 0.30
41 2 0.05
42 18 0.41
43 5 0.11
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.25
Consensus pattern (40 bp):
AAATAAAAAAAAAAAATAGAATATAAGAATATATATATAT
Found at i:136513 original size:43 final size:42
Alignment explanation
Indices: 136439--136542 Score: 127
Period size: 43 Copynumber: 2.4 Consensus size: 42
136429 ATAAAGTAAA
*
136439 AATATAATATATATAAATAAAAAAACAAAAATAGAATATTAAG
1 AATAT-ATATATATATATAAAAAAACAAAAATAGAATATTAAG
*** *
136482 AATATATATATATATATAAAAATGTATAAAATATAATATTAAG
1 AATATATATATATATATAAAAAAACA-AAAATAGAATATTAAG
* *
136525 AAAAAATATATATATATA
1 AATATATATATATATATA
136543 GCAAATGGAG
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
42 17 0.32
43 36 0.68
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (42 bp):
AATATATATATATATATAAAAAAACAAAAATAGAATATTAAG
Found at i:136558 original size:45 final size:43
Alignment explanation
Indices: 136411--136562 Score: 121
Period size: 43 Copynumber: 3.5 Consensus size: 43
136401 TATTAAGGAA
* * *
136411 AAAAATAGAAAAAATA-AA-ATAAAGTAAAAATATAATATATAT
1 AAAAATGGAAAAAATATAATATTAAGAAAAAATAT-ATATATAT
*** * * *
136453 AAATAAAAAAACAAAAATAGAATATTAAGAATATATATATATATAT
1 -AA-AAATGGA-AAAAATATAATATTAAGAAAAAATATATATATAT
* *
136499 AAAAATGTATAAAATATAATATTAAGAAAAAATATATATATAT
1 AAAAATGGAAAAAATATAATATTAAGAAAAAATATATATATAT
*
136542 AGCAAATGGAGAAAAAT-TAAT
1 A-AAAATGGA-AAAAATATAAT
136563 CCATCTATAC
Statistics
Matches: 87, Mismatches: 16, Indels: 11
0.76 0.14 0.10
Matches are distributed among these distances:
43 33 0.38
44 19 0.22
45 14 0.16
46 10 0.11
47 11 0.13
ACGTcount: A:0.65, C:0.01, G:0.07, T:0.27
Consensus pattern (43 bp):
AAAAATGGAAAAAATATAATATTAAGAAAAAATATATATATAT
Found at i:136612 original size:14 final size:14
Alignment explanation
Indices: 136595--136631 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
136585 CGATATATAT
136595 ATATAATAAAAATA
1 ATATAATAAAAATA
*
136609 ATATAATATAAATA
1 ATATAATAAAAATA
136623 A-ATAA-AAAA
1 ATATAATAAAA
136632 GAGGAATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 3 0.14
13 4 0.19
14 14 0.67
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
ATATAATAAAAATA
Found at i:138199 original size:110 final size:110
Alignment explanation
Indices: 138055--138261 Score: 288
Period size: 110 Copynumber: 1.9 Consensus size: 110
138045 AACTGGGAAA
* * *
138055 TTGTTTGTTGACAGCCAGCCGCCCCTTCGCTGTGAAGTTGAGATTGTGTTGTCTCAAGTTCAATA
1 TTGTTTGTTGACAACCAGCCGCCCCTTCACTGTGAAGTTGAGATTGTGTTGTCTCAAGTCCAATA
* *
138120 TCCTTCATTGTGAAGTTGAAATTGACTATGAATGAAACTGAAAAG
66 TCCCTCACTGTGAAGTTGAAATTGACTATGAATGAAACTGAAAAG
* * * * * **
138165 TTGTTTGTTGACAATCAGTCGCCCCTTCATTGTGAAGTTGAGCTTGTTTTGTCTTGAGTCCAATA
1 TTGTTTGTTGACAACCAGCCGCCCCTTCACTGTGAAGTTGAGATTGTGTTGTCTCAAGTCCAATA
* *
138230 TCCCTCGCTGTGAAGTTGAAATTGACTCTGAA
66 TCCCTCACTGTGAAGTTGAAATTGACTATGAA
138262 ACTGGGAAGC
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
110 83 1.00
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (110 bp):
TTGTTTGTTGACAACCAGCCGCCCCTTCACTGTGAAGTTGAGATTGTGTTGTCTCAAGTCCAATA
TCCCTCACTGTGAAGTTGAAATTGACTATGAATGAAACTGAAAAG
Found at i:138372 original size:43 final size:42
Alignment explanation
Indices: 138305--138385 Score: 117
Period size: 43 Copynumber: 1.9 Consensus size: 42
138295 CAAATGGCAC
* * *
138305 GATATCCTCCTTCGTAGAGTTGAAATCGTGGATGTACGGGTAT
1 GATATCCTCCGTCGTAGAGATGAAATCGCGGATG-ACGGGTAT
*
138348 GATATCCTCCGTCGTGGAGATGAAATCGCGGATGACGG
1 GATATCCTCCGTCGTAGAGATGAAATCGCGGATGACGG
138386 ATATCCTTCG
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
42 4 0.12
43 30 0.88
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.27
Consensus pattern (42 bp):
GATATCCTCCGTCGTAGAGATGAAATCGCGGATGACGGGTAT
Found at i:149814 original size:18 final size:20
Alignment explanation
Indices: 149793--149833 Score: 52
Period size: 18 Copynumber: 2.2 Consensus size: 20
149783 AAACACGTAA
*
149793 AAAAAAT-AATAAAAT-AAT
1 AAAAAATAAACAAAATGAAT
149811 -AAAAATAAACAAAATGAAT
1 AAAAAATAAACAAAATGAAT
149830 AAAA
1 AAAA
149834 TGTTAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 4
0.79 0.04 0.17
Matches are distributed among these distances:
17 6 0.32
18 7 0.37
19 3 0.16
20 3 0.16
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (20 bp):
AAAAAATAAACAAAATGAAT
Found at i:149814 original size:19 final size:19
Alignment explanation
Indices: 149792--149833 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
149782 AAAACACGTA
*
149792 AAAAAAATAATAAAAT-AAT
1 AAAAAAA-AACAAAATGAAT
*
149811 AAAAATAAACAAAATGAAT
1 AAAAAAAAACAAAATGAAT
149830 AAAA
1 AAAA
149834 TGTTAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 7 0.35
19 13 0.65
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (19 bp):
AAAAAAAAACAAAATGAAT
Found at i:150227 original size:14 final size:14
Alignment explanation
Indices: 150190--150227 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
150180 TATAAGATAT
*
150190 ATATAACAAAAATA
1 ATATAATAAAAATA
150204 ATATAATAAAAATA
1 ATATAATAAAAATA
*
150218 ATATAGTAAA
1 ATATAATAAA
150228 TAAATAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.26
Consensus pattern (14 bp):
ATATAATAAAAATA
Found at i:151444 original size:21 final size:21
Alignment explanation
Indices: 151420--151472 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
151410 TGTCTTTTTC
**
151420 AAGGACATTTTCTCTTCTCAT
1 AAGGACATTCACTCTTCTCAT
151441 AAGGACATTCACTCTTCTCAT
1 AAGGACATTCACTCTTCTCAT
151462 AAGGACATTCA
1 AAGGACATTCA
151473 TGATAGTTGC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.25, G:0.11, T:0.34
Consensus pattern (21 bp):
AAGGACATTCACTCTTCTCAT
Found at i:151757 original size:76 final size:75
Alignment explanation
Indices: 151644--151837 Score: 268
Period size: 76 Copynumber: 2.6 Consensus size: 75
151634 ATCTCACTTG
* * * *
151644 AGATTGTTTGTCTTTAAAACCATATTTGTCTCACTTGAGACAGTTTTTACTCGAAAGAAGACATT
1 AGATTGTTTTTC-TTAAAACAATATTTGTCTCGCTTGAGACAGTTTTTACTCGAAAAAAG-CATT
151709 TCATTTCACTCA
64 TCATTTCACTCA
*
151721 ATATTGTTTTTCTTAAAACAATATTTGTCTCGCTTGAGACAGTTTTTACTCGAAAAAAGCATTTC
1 AGATTGTTTTTCTTAAAACAATATTTGTCTCGCTTGAGACAGTTTTTACTCGAAAAAAGCATTTC
151786 ATTTCACTCA
66 ATTTCACTCA
* * * *
151796 AGATTG--TTTATTAAAA-AATATTTATCTTGCTTGAGATAGTTT
1 AGATTGTTTTTCTTAAAACAATATTTGTCTCGCTTGAGACAGTTT
151838 CATTCAAAAC
Statistics
Matches: 107, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
72 23 0.21
73 9 0.08
75 21 0.20
76 44 0.41
77 10 0.09
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.42
Consensus pattern (75 bp):
AGATTGTTTTTCTTAAAACAATATTTGTCTCGCTTGAGACAGTTTTTACTCGAAAAAAGCATTTC
ATTTCACTCA
Found at i:151870 original size:39 final size:39
Alignment explanation
Indices: 151816--152304 Score: 570
Period size: 39 Copynumber: 12.6 Consensus size: 39
151806 TTAAAAAATA
* * * *
151816 TTTATCTTGCTTGAGATAGTTTCATTCAAAACAGAACAG
1 TTTATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGAT
* * * *
151855 TTTATCTTGTTTGAGATAGTTAT-ACTCAAAATATAAGAT
1 TTTATCTCGCTTGAGATAGTT-TCACTCAAAACAGAAGAT
*
151894 TTTATCTCGCTTGAGATAGTTTCACTCGAAACAGAAGAT
1 TTTATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGAT
* * * *
151933 TTTATCTCACTTGAGATAGTTTCATTCGAAACAAAAGAT
1 TTTATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGAT
* * *
151972 TTTACCTCGCTTGAGATAGTTTCACTTAAAACAAAAGAT
1 TTTATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGAT
* * * * **
152011 TTTATCTCG-TTACAAATAGTTTCACTCGAAATAGTTGAT
1 TTTATCTCGCTT-GAGATAGTTTCACTCAAAACAGAAGAT
* * * *
152050 TTTATATTGATTGAGATAGTTTCACTCGAAACAGAAGAT
1 TTTATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGAT
** * *
152089 TTTATCTCGCTTGAGATAGTTTCACTTGAAATAAAAGAT
1 TTTATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGAT
* * *
152128 TTTATCTCACTTGAGATAGTTTCACTAAAAACAAAAGAT
1 TTTATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGAT
**
152167 TTTATCTCGCTTGAGATAGTTTCACTTGAAACAGAAGAT
1 TTTATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGAT
152206 TTTATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGAT
1 TTTATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGAT
* * *
152245 TTTATCTCGCATGAGATAGTTTTACTCGAAACAGAAGA-
1 TTTATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGAT
* * *
152283 TTCATCTCACTTGAGATTGTTT
1 TTTATCTCGCTTGAGATAGTTT
152305 TTCTTAAAAC
Statistics
Matches: 388, Mismatches: 58, Indels: 9
0.85 0.13 0.02
Matches are distributed among these distances:
38 21 0.05
39 364 0.94
40 3 0.01
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.37
Consensus pattern (39 bp):
TTTATCTCGCTTGAGATAGTTTCACTCAAAACAGAAGAT
Found at i:152675 original size:92 final size:93
Alignment explanation
Indices: 152518--152763 Score: 273
Period size: 93 Copynumber: 2.7 Consensus size: 93
152508 ATTTTCTTTT
* * * *
152518 CTCGATTCACAACACTTCGAATCAACGACGCCTCACAT-GAGGGACCAACATTTCCAATAGAGAA
1 CTCGATTCACGACACTTCGAATCAATGACGCCTCAC-TCGAGGGATCAACATTTCCAGTAGAGAA
* * *
152582 TTTATGA-GAGGAACTTAT-TAAACCTTGG
65 TTCATAATGAAGAACTTATCT-AACCTTGG
* * * * * *
152610 CTCGATTCATGTCACTTCGAATCAATGATGCCTTACTCGAGCGATCAACATTTCTAGTAGAGAAT
1 CTCGATTCACGACACTTCGAATCAATGACGCCTCACTCGAGGGATCAACATTTCCAGTAGAGAAT
* * *
152675 TCATAATGAAGAGCTTGTCTAACCTTTG
66 TCATAATGAAGAACTTATCTAACCTTGG
* * * *
152703 CTCGATTCACGACATTTCGAATCAATGACGCCTCACTCAAGGGGTGAACATTTCCAGTAGA
1 CTCGATTCACGACACTTCGAATCAATGACGCCTCACTCGAGGGATCAACATTTCCAGTAGA
152764 AAGATTATGA
Statistics
Matches: 125, Mismatches: 26, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
91 1 0.01
92 57 0.46
93 66 0.53
94 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (93 bp):
CTCGATTCACGACACTTCGAATCAATGACGCCTCACTCGAGGGATCAACATTTCCAGTAGAGAAT
TCATAATGAAGAACTTATCTAACCTTGG
Found at i:154176 original size:20 final size:21
Alignment explanation
Indices: 154151--154202 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
154141 TTTTCCCAAT
*
154151 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
154171 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
154192 TCGCAATGCGA
1 TCGCAATGCGA
154203 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:154216 original size:20 final size:20
Alignment explanation
Indices: 154191--154304 Score: 95
Period size: 20 Copynumber: 5.7 Consensus size: 20
154181 AATTGGGAAA
*
154191 ATCGCAATGCGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
154211 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTGACT
* * * * *
154231 ATCGTAATGTGATAAT-ACAAA
1 ATCGCAACGCGATACTGAC--T
*
154252 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTGACT
* *
154272 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTGACT
*
154292 TTCGCAACGCGAT
1 ATCGCAACGCGAT
154305 TTACATAGCG
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
19 2 0.03
20 62 0.79
21 12 0.15
22 2 0.03
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (20 bp):
ATCGCAACGCGATACTGACT
Found at i:154882 original size:18 final size:19
Alignment explanation
Indices: 154857--154899 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
154847 GCAACGAGAG
*
154857 ATCGCAACGCGAAATAAAA
1 ATCGCAACGCGAAACAAAA
154876 A-CGCAACGCGAAACAAAA
1 ATCGCAACGCGAAACAAAA
154894 ATCGCA
1 ATCGCA
154900 TTGCGATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.51, C:0.26, G:0.16, T:0.07
Consensus pattern (19 bp):
ATCGCAACGCGAAACAAAA
Found at i:154946 original size:33 final size:33
Alignment explanation
Indices: 154909--154996 Score: 149
Period size: 33 Copynumber: 2.6 Consensus size: 33
154899 ATTGCGATTT
*
154909 TCATTTCGCGTTGCGATTCTCTGGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
154942 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
154975 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
154997 ATTATCTCGT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
33 37 0.71
34 15 0.29
ACGTcount: A:0.11, C:0.26, G:0.24, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:154998 original size:20 final size:20
Alignment explanation
Indices: 154964--155021 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
154954 GCGATTCTCT
**
154964 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATTCTCATTTCCG
*
154984 CGTTGCGATTCTCATTAT-CT
1 CGTTGCGATTCTCATT-TCCG
*
155004 CGTTGCGATTTTCATTTC
1 CGTTGCGATTCTCATTTC
155022 AACCAAAAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 1 0.03
20 30 0.94
21 1 0.03
ACGTcount: A:0.14, C:0.24, G:0.19, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTCTCATTTCCG
Found at i:156677 original size:57 final size:57
Alignment explanation
Indices: 156584--156700 Score: 216
Period size: 57 Copynumber: 2.1 Consensus size: 57
156574 GAGATGGTAG
*
156584 TATCATTGCAGAATGAGGTTCATACTCTATGCAACGAGGTAAGTTTAAGATTTTCCA
1 TATCATTGCAGAATGAGGTTCATACTCTACGCAACGAGGTAAGTTTAAGATTTTCCA
*
156641 TATCGTTGCAGAATGAGGTTCATACTCTACGCAACGAGGTAAGTTTAAGATTTTCCA
1 TATCATTGCAGAATGAGGTTCATACTCTACGCAACGAGGTAAGTTTAAGATTTTCCA
156698 TAT
1 TAT
156701 TTAACTTGAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (57 bp):
TATCATTGCAGAATGAGGTTCATACTCTACGCAACGAGGTAAGTTTAAGATTTTCCA
Found at i:157153 original size:21 final size:21
Alignment explanation
Indices: 157129--157195 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
157119 TCATTCCTCG
157129 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
157150 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
157171 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
157192 AGAG
1 AGAG
157196 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:157153 original size:42 final size:42
Alignment explanation
Indices: 157077--157195 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
157067 GACTCGCCTG
* * * * * * *
157077 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
157119 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
157161 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
157196 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:159948 original size:24 final size:24
Alignment explanation
Indices: 159914--159967 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
159904 CTGAAACATC
* *
159914 ATCAAAATCCGTGTATTGACCAAT
1 ATCAAAATCCGGGTATTGACCAAG
*
159938 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGGGTATTGACCAAG
159962 ATCAAA
1 ATCAAA
159968 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.20, G:0.17, T:0.24
Consensus pattern (24 bp):
ATCAAAATCCGGGTATTGACCAAG
Found at i:161049 original size:20 final size:20
Alignment explanation
Indices: 161024--161080 Score: 98
Period size: 19 Copynumber: 2.9 Consensus size: 20
161014 ATTCATTTGA
161024 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
161044 CTATCGCAACGCG-AAATGG
1 CTATCGCAACGCGAAAATGG
*
161063 CTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
161081 CGCAATGCGA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
19 18 0.51
20 17 0.49
ACGTcount: A:0.37, C:0.25, G:0.23, T:0.16
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Done.